qc-analysis-pipeline
Workflows used for QC of WGS data
Whole Genome Single Sample QC :
This WDL pipeline implements QC in human whole-genome sequencing data.
Requirements/expectations
- Human whole-genome paired-end sequencing data in aligned BAM or CRAM format
- Input BAM/CRAM files must additionally comply with the following requirements:
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- files must pass validation by ValidateSamFile
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- reads are provided in query-sorted order
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- all reads must have an RG tag
- Reference gen
This is a companion discussion topic for the original entry at github.com/jasonwalker80/qc-analysis-pipeline